parathyroid

RNA-Seq data of primary cultures of parathyroid tumors by Haglund et al., J Clin Endocrinol Metab 2012.

Bioconductor version: Release (2.14)

This package provides a CountDataSet and ExonCountSet of read counts for paired-end RNA-Seq data from experiments on primary cultures of parathyroid tumors. The data were presented in the article "Evidence of a Functional Estrogen Receptor in Parathyroid Adenomas" by Haglund F, Ma R, Huss M, Sulaiman L, Lu M, Nilsson IL, Hoog A, Juhlin CC, Hartman J, Larsson C, J Clin Endocrinol Metab. jc.2012-2484, Epub 2012 Sep 28, PMID: 23024189. The sequencing was performed on tumor cultures from 4 patients at 2 time points over 3 conditions (DPN, OHT and control). One control sample was omitted by the paper authors due to low quality. The package vignette describes the creation of objects from raw sequencing data provided by NCBI Gene Expression Omnibus under accession number GSE37211. The gene and exon features are the GRCh37 Ensembl annotations, release 66.

Author: Michael Love

Maintainer: Michael Love <michaelisaiahlove at gmail.com>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("parathyroid")

To cite this package in a publication, start R and enter:

    citation("parathyroid")

Documentation

PDF R Script parathyroidExons and parathyroidGenes
PDF   Reference Manual

Details

biocViews ExperimentData, RNAseqData
Version 1.0.0
License LGPL
Depends DEXSeq, DESeq, R (>= 2.10)
Imports
Suggests GEOquery, SRAdb
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source parathyroid_1.0.0.tar.gz
Windows Binary parathyroid_1.0.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) parathyroid_1.0.0.tgz
Mac OS X 10.9 (Mavericks) parathyroid_1.0.0.tgz
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